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1.

FEAST: fast expectation-maximization for microbial source tracking.

Shenhav, Liat; Thompson, Mike; Joseph, Tyler A; Briscoe, Leah; Furman, Ori; Bogumil, David; Mizrahi, Itzhak; Pe'er, Itsik; Halperin, Eran.

Nat Methods; 16(7): 627-632, 2019 07.

Artículo en Inglés | MEDLINE | ID: mdl-31182859

2.

Compositional Lotka-Volterra describes microbial dynamics in the simplex.

Joseph, Tyler A; Shenhav, Liat; Xavier, Joao B; Halperin, Eran; Pe'er, Itsik.

PLoS Comput Biol; 16(5): e1007917, 2020 05.

Artículo en Inglés | MEDLINE | ID: mdl-32469867

3.

Modeling the temporal dynamics of the gut microbial community in adults and infants.

Shenhav, Liat; Furman, Ori; Briscoe, Leah; Thompson, Mike; Silverman, Justin D; Mizrahi, Itzhak; Halperin, Eran.

PLoS Comput Biol; 15(6): e1006960, 2019 06.

Artículo en Inglés | MEDLINE | ID: mdl-31246943

4.

GLINT: a user-friendly toolset for the analysis of high-throughput DNA-methylation array data.

Rahmani, Elior; Yedidim, Reut; Shenhav, Liat; Schweiger, Regev; Weissbrod, Omer; Zaitlen, Noah; Halperin, Eran.

Bioinformatics; 33(12): 1870-1872, 2017 Jun 15.

Artículo en Inglés | MEDLINE | ID: mdl-28177067

5.

Personalized mood prediction from patterns of behavior collected with smartphones.

Balliu, Brunilda; Douglas, Chris; Seok, Darsol; Shenhav, Liat; Wu, Yue; Chatzopoulou, Doxa; Kaiser, William; Chen, Victor; Kim, Jennifer; Deverasetty, Sandeep; Arnaudova, Inna; Gibbons, Robert; Congdon, Eliza; Craske, Michelle G; Freimer, Nelson; Halperin, Eran; Sankararaman, Sriram; Flint, Jonathan.

NPJ Digit Med; 7(1): 49, 2024 Feb 28.

Artículo en Inglés | MEDLINE | ID: mdl-38418551

6.

A conserved interdomain microbial network underpins cadaver decomposition despite environmental variables.

Burcham, Zachary M; Belk, Aeriel D; McGivern, Bridget B; Bouslimani, Amina; Ghadermazi, Parsa; Martino, Cameron; Shenhav, Liat; Zhang, Anru R; Shi, Pixu; Emmons, Alexandra; Deel, Heather L; Xu, Zhenjiang Zech; Nieciecki, Victoria; Zhu, Qiyun; Shaffer, Michael; Panitchpakdi, Morgan; Weldon, Kelly C; Cantrell, Kalen; Ben-Hur, Asa; Reed, Sasha C; Humphry, Greg C; Ackermann, Gail; McDonald, Daniel; Chan, Siu Hung Joshua; Connor, Melissa; Boyd, Derek; Smith, Jake; Watson, Jenna M S; Vidoli, Giovanna; Steadman, Dawnie; Lynne, Aaron M; Bucheli, Sibyl; Dorrestein, Pieter C; Wrighton, Kelly C; Carter, David O; Knight, Rob; Metcalf, Jessica L.

Nat Microbiol; 9(3): 595-613, 2024 Mar.

Artículo en Inglés | MEDLINE | ID: mdl-38347104

7.

Microdiversity of the Vaginal Microbiome is Associated with Preterm Birth.

Liao, Jingqiu; Shenhav, Liat; Urban, Julia A; Serrano, Myrna; Zhu, Bin; Buck, Gregory A; Korem, Tal.

bioRxiv; 2023 Jun 17.

Artículo en Inglés | MEDLINE | ID: mdl-36711990

8.

Microdiversity of the vaginal microbiome is associated with preterm birth.

Liao, Jingqiu; Shenhav, Liat; Urban, Julia A; Serrano, Myrna; Zhu, Bin; Buck, Gregory A; Korem, Tal.

Nat Commun; 14(1): 4997, 2023 08 17.

Artículo en Inglés | MEDLINE | ID: mdl-37591872

9.

Contamination source modeling with SCRuB improves cancer phenotype prediction from microbiome data.

Austin, George I; Park, Heekuk; Meydan, Yoli; Seeram, Dwayne; Sezin, Tanya; Lou, Yue Clare; Firek, Brian A; Morowitz, Michael J; Banfield, Jillian F; Christiano, Angela M; Pe'er, Itsik; Uhlemann, Anne-Catrin; Shenhav, Liat; Korem, Tal.

Nat Biotechnol; 41(12): 1820-1828, 2023 Dec.

Artículo en Inglés | MEDLINE | ID: mdl-36928429

10.

A Modified Mediterranean Ketogenic Diet mitigates modifiable risk factors of Alzheimer's Disease: a serum and CSF-based metabolic analysis.

Schweickart, Annalise; Batra, Richa; Neth, Bryan J; Martino, Cameron; Shenhav, Liat; Zhang, Anru R; Shi, Pixu; Karu, Naama; Huynh, Kevin; Meikle, Peter J; Schimmel, Leyla; Dilmore, Amanda Hazel; Blennow, Kaj; Zetterberg, Henrik; Blach, Colette; Dorrestein, Pieter C; Knight, Rob; Craft, Suzanne; Kaddurah-Daouk, Rima; Krumsiek, Jan.

medRxiv; 2023 Nov 27.

Artículo en Inglés | MEDLINE | ID: mdl-38076824

11.

Using Community Ecology Theory and Computational Microbiome Methods To Study Human Milk as a Biological System.

Shenhav, Liat; Azad, Meghan B.

mSystems; 7(1): e0113221, 2022 02 22.

Artículo en Inglés | MEDLINE | ID: mdl-35103486

12.

STENSL: Microbial Source Tracking with ENvironment SeLection.

An, Ulzee; Shenhav, Liat; Olson, Christine A; Hsiao, Elaine Y; Halperin, Eran; Sankararaman, Sriram.

mSystems; 7(5): e0099521, 2022 10 26.

Artículo en Inglés | MEDLINE | ID: mdl-36047699

13.

Compositionally Aware Phylogenetic Beta-Diversity Measures Better Resolve Microbiomes Associated with Phenotype.

Martino, Cameron; McDonald, Daniel; Cantrell, Kalen; Dilmore, Amanda Hazel; Vázquez-Baeza, Yoshiki; Shenhav, Liat; Shaffer, Justin P; Rahman, Gibraan; Armstrong, George; Allaband, Celeste; Song, Se Jin; Knight, Rob.

mSystems; 7(3): e0005022, 2022 06 28.

Artículo en Inglés | MEDLINE | ID: mdl-35477286

14.

Context-aware dimensionality reduction deconvolutes gut microbial community dynamics.

Martino, Cameron; Shenhav, Liat; Marotz, Clarisse A; Armstrong, George; McDonald, Daniel; Vázquez-Baeza, Yoshiki; Morton, James T; Jiang, Lingjing; Dominguez-Bello, Maria Gloria; Swafford, Austin D; Halperin, Eran; Knight, Rob.

Nat Biotechnol; 39(2): 165-168, 2021 02.

Artículo en Inglés | MEDLINE | ID: mdl-32868914

15.

Naturalization of the microbiota developmental trajectory of Cesarean-born neonates after vaginal seeding.

Song, Se Jin; Wang, Jincheng; Martino, Cameron; Jiang, Lingjing; Thompson, Wesley K; Shenhav, Liat; McDonald, Daniel; Marotz, Clarisse; Harris, Paul R; Hernandez, Caroll D; Henderson, Nora; Ackley, Elizabeth; Nardella, Deanna; Gillihan, Charles; Montacuti, Valentina; Schweizer, William; Jay, Melanie; Combellick, Joan; Sun, Haipeng; Garcia-Mantrana, Izaskun; Gil Raga, Fernando; Collado, Maria Carmen; Rivera-Viñas, Juana I; Campos-Rivera, Maribel; Ruiz-Calderon, Jean F; Knight, Rob; Dominguez-Bello, Maria Gloria.

Med; 2(8): 951-964.e5, 2021 08 13.

Artículo en Inglés | MEDLINE | ID: mdl-35590169

16.

Resource conservation manifests in the genetic code.

Shenhav, Liat; Zeevi, David.

Science; 370(6517): 683-687, 2020 Nov 06.

Artículo en Inglés | MEDLINE | ID: mdl-33154134

17.

Stochasticity constrained by deterministic effects of diet and age drive rumen microbiome assembly dynamics.

Furman, Ori; Shenhav, Liat; Sasson, Goor; Kokou, Fotini; Honig, Hen; Jacoby, Shamay; Hertz, Tomer; Cordero, Otto X; Halperin, Eran; Mizrahi, Itzhak.

Nat Commun; 11(1): 1904, 2020 04 20.

Artículo en Inglés | MEDLINE | ID: mdl-32312972

18.

Re-examining the robustness of voice features in predicting depression: Compared with baseline of confounders.

Pan, Wei; Flint, Jonathan; Shenhav, Liat; Liu, Tianli; Liu, Mingming; Hu, Bin; Zhu, Tingshao.

PLoS One; 14(6): e0218172, 2019.

Artículo en Inglés | MEDLINE | ID: mdl-31220113

19.

Using Stochastic Approximation Techniques to Efficiently Construct Confidence Intervals for Heritability.

Schweiger, Regev; Fisher, Eyal; Rahmani, Elior; Shenhav, Liat; Rosset, Saharon; Halperin, Eran.

J Comput Biol; 25(7): 794-808, 2018 07.

Artículo en Inglés | MEDLINE | ID: mdl-29932739

20.

BayesCCE: a Bayesian framework for estimating cell-type composition from DNA methylation without the need for methylation reference.

Rahmani, Elior; Schweiger, Regev; Shenhav, Liat; Wingert, Theodora; Hofer, Ira; Gabel, Eilon; Eskin, Eleazar; Halperin, Eran.

Genome Biol; 19(1): 141, 2018 09 21.

Artículo en Inglés | MEDLINE | ID: mdl-30241486

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